Main

In your final repo, there should be an R markdown file that organizes all computational steps for evaluating your proposed Facial Expression Recognition framework.

This file is currently a template for running evaluation experiments. You should update it according to your codes but following precisely the same structure.

if(!require("EBImage")){
  install.packages("BiocManager")
  BiocManager::install("EBImage")
}

戼㸳̼愼㹤戼㸰昼㹣愼㸱愼㹥EBImage愼㸱愼㹦挼㹡挼㸷搼㸳挼㸳R戼㸰汾4.0.3 挼㸰戼㸴戼㹤愼㸸搼㸴攼㹣戼㸵挼㸴

if(!require("R.matlab")){
  install.packages("R.matlab")
}

戼㸳̼愼㹤戼㸰昼㹣愼㸱愼㹥R.matlab愼㸱愼㹦挼㹡挼㸷搼㸳挼㸳R戼㸰汾4.0.4 挼㸰戼㸴戼㹤愼㸸搼㸴攼㹣戼㸵挼㸴

if(!require("readxl")){
  install.packages("readxl")
}

if(!require("dplyr")){
  install.packages("dplyr")
}

戼㸳̼愼㹤戼㸰昼㹣愼㸱愼㹥dplyr愼㸱愼㹦挼㹡挼㸷搼㸳挼㸳R戼㸰汾4.0.3 挼㸰戼㸴戼㹤愼㸸搼㸴攼㹣戼㸵挼㸴

if(!require("readxl")){
  install.packages("readxl")
}

if(!require("ggplot2")){
  install.packages("ggplot2")
}

if(!require("caret")){
  install.packages("caret")
}

戼㸳̼愼㹤戼㸰昼㹣愼㸱愼㹥caret愼㸱愼㹦挼㹡挼㸷搼㸳挼㸳R戼㸰汾4.0.4 挼㸰戼㸴戼㹤愼㸸搼㸴攼㹣戼㸵挼㸴

if(!require("glmnet")){
  install.packages("glmnet")
}

戼㸳̼愼㹤戼㸰昼㹣愼㸱愼㹥glmnet愼㸱愼㹦挼㹡挼㸷搼㸳挼㸳R戼㸰汾4.0.4 挼㸰戼㸴戼㹤愼㸸搼㸴攼㹣戼㸵挼㸴

if(!require("WeightedROC")){
  install.packages("WeightedROC")
}

戼㸳̼愼㹤戼㸰昼㹣愼㸱愼㹥WeightedROC愼㸱愼㹦挼㹡挼㸷搼㸳挼㸳R戼㸰汾4.0.4 挼㸰戼㸴戼㹤愼㸸搼㸴攼㹣戼㸵挼㸴

library(R.matlab)
library(readxl)
library(dplyr)
library(EBImage)
library(ggplot2)
library(caret)
library(glmnet)
library(WeightedROC)

Step 0 set work directories

set.seed(2020)
setwd("E:/project3/Spring2021-Project3-group-2/doc")
# here replace it with your own path or manually set it in RStudio to where this rmd file is located. 
# use relative path for reproducibility

Provide directories for training images. Training images and Training fiducial points will be in different subfolders.

train_dir <- "../data/train_set/" # This will be modified for different data sets.
train_image_dir <- paste(train_dir, "images/", sep="")
train_pt_dir <- paste(train_dir,  "points/", sep="")
train_label_path <- paste(train_dir, "label.csv", sep="") 

Step 1: set up controls for evaluation experiments.

In this chunk, we have a set of controls for the evaluation experiments.

• (T/F) cross-validation on the training set
• (T/F) reweighting the samples for training set
• (number) K, the number of CV folds
• (T/F) process features for training set
• (T/F) run evaluation on an independent test set
• (T/F) process features for test set

run.cv <- TRUE # run cross-validation on the training set
sample.reweight <- TRUE # run sample reweighting in model training
K <- 5  # number of CV folds
run.feature.train <- TRUE # process features for training set
run.test <- TRUE # run evaluation on an independent test set
run.feature.test <- TRUE # process features for test set

Using cross-validation or independent test set evaluation, we compare the performance of models with different specifications. In this Starter Code, we tune parameter lambda (the amount of shrinkage) for logistic regression with LASSO penalty.

lmbd = c(1e-3, 5e-3, 1e-2, 5e-2, 1e-1)
model_labels = paste("LASSO Penalty with lambda =", lmbd)

Step 2: import data and train-test split

#train-test split
info <- read.csv(train_label_path)

挼㹥޷愼㸸戼㸴昼㸲戼㹦愼㹡挼㹥ļ昼㹥'../data/train_set/label.csv': No such file or directoryError in file(file, "rt") : 无法打开链结

If you choose to extract features from images, such as using Gabor filter, R memory will exhaust all images are read together. The solution is to repeat reading a smaller batch(e.g 100) and process them.

n_files <- length(list.files(train_image_dir))
image_list <- list()
for(i in 1:100){
   image_list[[i]] <- readImage(paste0(train_image_dir, sprintf("%04d", i), ".jpg"))
}

挼㹥޷愼㸸戼㸴昼㸲戼㹦愼㹡挼㹥ļ昼㹥'../data/train_set/images/0001.jpg': No such file or directory挼㹥޷愼㸸戼㸴昼㸲戼㹦愼㹡挼㸱戼㸴戼㹤攼㸱Error in transpose(y) : object is NULL

Fiducial points are stored in matlab format. In this step, we read them and store them in a list.

#function to read fiducial points
#input: index
#output: matrix of fiducial points corresponding to the index
readMat.matrix <- function(index, dir){
     return(round(readMat(paste0(dir, sprintf("%04d", index), ".mat"))[[1]],0))
}
#load fiducial points
fiducial_pt_list <- lapply(1:n_files, readMat.matrix, dir = train_pt_dir)

挼㹥޷愼㸸戼㸴昼㸲戼㹦愼㹡挼㹥ļ昼㹥'../data/train_set/points/0001.mat': No such file or directoryError in file(con, open = "rb") : 无法打开链结

Show a sample image for each class:

# Plot a sample image of each class
PlotSample <- function(label_num){
  sample_image <- load.image(paste0(train_image_dir, sprintf("%04d", label_num), ".jpg"))
  pts_df <- data.frame(fiducial_pt_list[label_num])
  # Point 38 marks the tip of nose, which is at the center of the face,
  # so use point 38 to crop the image
  pts_center <- pts_df[38,]
  # crop a 600*600 area
  cropped<- imsub(sample_image,x %inr% c(pts_center$X1-300,pts_center$X1+300), 
                               y %inr% c(pts_center$X2-300,pts_center$X1+300))
  pts_df <- pts_df %>%
    dplyr::mutate(X1 = X1 - (pts_center$X1-300),
                  X2 = X2 - (pts_center$X2-300))
  plot(cropped, axes=F, main = paste0("Class: ", info$label[label_num]))
  points(pts_df,col="white", pch=20)
  points(pts_df[c(19:23, 27:31, 50:63),],col="red", pch=20)
  for (i in 1:78) { 
    text(x = pts_df$X1[i], y = pts_df$X2[i],
        i,                     # text content
        col = "blue",
        cex = 0.5)
  }
}
PlotSample(1)

Error in load.image(paste0(train_image_dir, sprintf("%04d", label_num),  : 
  没有"load.image"这个函数

Step 3: construct features and responses

• The follow plots show how pairwise distance between fiducial points can work as feature for facial emotion recognition.

  • In the first column, 78 fiducials points of each emotion are marked in order.
  • In the second column distributions of vertical distance between right pupil(1) and right brow peak(21) are shown in histograms. For example, the distance of an angry face tends to be shorter than that of a surprised face.
  • The third column is the distributions of vertical distances between right mouth corner(50) and the midpoint of the upper lip(52). For example, the distance of an happy face tends to be shorter than that of a sad face.

Figure1

feature.R should be the wrapper for all your feature engineering functions and options. The function feature( ) should have options that correspond to different scenarios for your project and produces an R object that contains features and responses that are required by all the models you are going to evaluate later.

• feature.R
• Input: list of images or fiducial point
• Output: an RData file that contains extracted features and corresponding responses

source("../lib/feature.R")
# read feature set 0
tm_feature0_train <- NA
if(run.feature.train){
  tm_feature0_train <- system.time(feature0_train <- feature(fiducial_pt_list, train_idx))
  save(feature0_train, file="../output/feature_set0_train.RData")
}else{
  load(file="../output/feature_set0_train.RData")
}

Error in h(simpleError(msg, call)) : 
  在为't'函数选择方法时评估'x'参数出了错: 找不到对象'fiducial_pt_list' 

Timing stopped at: 0.03 0.01 0.11

# read feature set 1
tm_feature1_train <- NA
if(run.feature.train){
  tm_feature1_train <- system.time(feature1_train <- GetPairwiseFeature(fiducial_pt_list, train_idx))
  save(feature1_train, file="../output/feature_set1_train.RData")
}else{
  load(file="../output/feature_set1_train.RData")
}
tm_feature1_test <- NA
if(run.feature.test){
  tm_feature1_test <- system.time(feature1_test <- GetPairwiseFeature(fiducial_pt_list, test_idx))
  save(feature1_test, file="../output/feature_set1_test.RData")
}else{
  load(file="../output/feature_set1_test.RData")
}

Step 4: Train a classification model with training features and responses

Call the train model and test model from library.

train.R and test.R should be wrappers for all your model training steps and your classification/prediction steps.

• train.R
  • Input: a data frame containing features and labels and a parameter list.
  • Output:a trained model
• test.R
  • Input: the fitted classification model using training data and processed features from testing images
  • Input: an R object that contains a trained classifier.
  • Output: training model specification
• In this Starter Code, we use logistic regression with LASSO penalty to do classification.

source("../lib/train.R") 
source("../lib/test.R")

Added by Yibai

model_gbm <- train_gbm(feature0_train, feature0_train$label, cv = 5, n = 100)
print(model_gbm)
gbm.perf(model_gbm, method = "cv")

Model selection with cross-validation

• Do model selection by choosing among different values of training model parameters.

source("../lib/cross_validation.R")
feature_train = as.matrix(dat_train[, -6007])
label_train = as.integer(dat_train$label) 
if(run.cv){
  res_cv <- matrix(0, nrow = length(lmbd), ncol = 4)
  for(i in 1:length(lmbd)){
    cat("lambda = ", lmbd[i], "\n")
    res_cv[i,] <- cv.function(features = feature_train, labels = label_train, K, 
                              l = lmbd[i], reweight = sample.reweight)
  save(res_cv, file="../output/res_cv.RData")
  }
}else{
  load("../output/res_cv.RData")
}

Visualize cross-validation results.

  
res_cv <- as.data.frame(res_cv) 
colnames(res_cv) <- c("mean_error", "sd_error", "mean_AUC", "sd_AUC")
res_cv$k = as.factor(lmbd)

if(run.cv){
  p1 <- res_cv %>% 
    ggplot(aes(x = as.factor(lmbd), y = mean_error,
               ymin = mean_error - sd_error, ymax = mean_error + sd_error)) + 
    geom_crossbar() +
    theme(axis.text.x = element_text(angle = 90, hjust = 1))
  
  p2 <- res_cv %>% 
    ggplot(aes(x = as.factor(lmbd), y = mean_AUC,
               ymin = mean_AUC - sd_AUC, ymax = mean_AUC + sd_AUC)) + 
    geom_crossbar() +
    theme(axis.text.x = element_text(angle = 90, hjust = 1))
  
  print(p1)
  print(p2)
}

• Choose the “best” parameter value

par_best <- lmbd[which.min(res_cv$mean_error)] # lmbd[which.max(res_cv$mean_AUC)]

• Train the model with the entire training set using the selected model (model parameter) via cross-validation.

# training weights
weight_train <- rep(NA, length(label_train))
for (v in unique(label_train)){
  weight_train[label_train == v] = 0.5 * length(label_train) / length(label_train[label_train == v])
}
if (sample.reweight){
  tm_train <- system.time(fit_train <- train(feature_train, label_train, w = weight_train, par_best))
} else {
  tm_train <- system.time(fit_train <- train(feature_train, label_train, w = NULL, par_best))
}
save(fit_train, file="../output/fit_train.RData")

Step 5: Run test on test images

tm_test = NA
feature_test <- as.matrix(dat_test[, -6007])
if(run.test){
  load(file="../output/fit_train.RData")
  tm_test <- system.time({label_pred <- as.integer(test(fit_train, feature_test, pred.type = 'class')); 
                          prob_pred <- test(fit_train, feature_test, pred.type = 'response')})
}

• evaluation

## reweight the test data to represent a balanced label distribution
label_test <- as.integer(dat_test$label)
weight_test <- rep(NA, length(label_test))
for (v in unique(label_test)){
  weight_test[label_test == v] = 0.5 * length(label_test) / length(label_test[label_test == v])
}

accu <- sum(weight_test * (label_pred == label_test)) / sum(weight_test)
tpr.fpr <- WeightedROC(prob_pred, label_test, weight_test)
auc <- WeightedAUC(tpr.fpr)


cat("The accuracy of model:", model_labels[which.min(res_cv$mean_error)], "is", accu*100, "%.\n")
cat("The AUC of model:", model_labels[which.min(res_cv$mean_error)], "is", auc, ".\n")

Summarize Running Time

Prediction performance matters, so does the running times for constructing features and for training the model, especially when the computation resource is limited.

cat("Time for constructing training features=", tm_feature_train[1], "s \n")
cat("Time for constructing testing features=", tm_feature_test[1], "s \n")
cat("Time for training model=", tm_train[1], "s \n") 
cat("Time for testing model=", tm_test[1], "s \n")

###Reference - Du, S., Tao, Y., & Martinez, A. M. (2014). Compound facial expressions of emotion. Proceedings of the National Academy of Sciences, 111(15), E1454-E1462.